Figure 4
From: Evolutionary distance estimation and fidelity of pair wise sequence alignment
Effects of parameter changes on alignment accuracy and relative error in evolutionary distance estimation. Ordinate axes are scaled to match Figure 3. Alignment accuracy (A, C, E, G, &I) and evolutionary distance estimation (B, D, F, H, &J). (A &B) Effect of initial sequence length. (C &D) Effect of mean insertion and deletion size. (E &F) Effect of insertion and deletion rate. (G &H) Effect of intersite rate variation. (I &J). Effect of nucleotide frequency bias (G+C content). Error bars represent ± one standard deviation. Black and white points represent HKY simulations with expected distances of 0.5 and 1.0, respectively.